//
// Strelka - Small Variant Caller
// Copyright (c) 2009-2018 Illumina, Inc.
//
// This program is free software: you can redistribute it and/or modify
// it under the terms of the GNU General Public License as published by
// the Free Software Foundation, either version 3 of the License, or
// at your option) any later version.
//
// This program is distributed in the hope that it will be useful,
// but WITHOUT ANY WARRANTY; without even the implied warranty of
// MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
// GNU General Public License for more details.
//
// You should have received a copy of the GNU General Public License
// along with this program.  If not, see <http://www.gnu.org/licenses/>.
//
//

///
/// \author Chris Saunders
///

#pragma once


#include <vector>


struct read_base_mismatch_info
{
    int mismatch_count;
    int mismatch_count_ns;

    // tmp workspace for create mismatch filter:
    int delta;

    bool mismatch_filter_map;
    bool tier2_mismatch_filter_map;

    // tmp workspace for create mismatch filter:
    bool is_mismatch;
};

typedef std::vector<read_base_mismatch_info> read_mismatch_info;
